Pure hydrogen low-temperature plasma exposure of HOPG and graphene: Graphane formation?

Single- and multilayer graphene and highly ordered pyrolytic graphite (HOPG) were exposed to a pure hydrogen low-temperature plasma (LTP). Characterizations include various experimental techniques such as photoelectron spectroscopy, Raman spectroscopy and scanning probe microscopy. Our photoemission measurement shows that hydrogen LTP exposed HOPG has a diamond-like valence-band structure, which suggests double-sided hydrogenation. With the scanning tunneling microscopy technique, various atomic-scale charge-density patterns were observed, which may be associated with different C-H conformers. Hydrogen-LTP-exposed graphene on SiO₂ has a Raman spectrum in which the D peak to G peak ratio is over 4, associated with hydrogenation on both sides. A very low defect density was observed in the scanning probe microscopy measurements, which enables a reverse transformation to graphene. Hydrogen-LTP-exposed HOPG possesses a high thermal stability, and therefore, this transformation requires annealing at over 1000 °C

A 3D scanner for transparent glass

Many practical tasks in industry, such as automatic inspection or robot vision, often require the scanning of three-dimensional shapes by use of non-contact techniques. However, few methods have been proposed to measure three-dimensional shapes of transparent objects because of the difficulty of dealing with transparency and specularity of the surface. This paper presents a 3D scanner for transparent glass objects based on Scanning From Heating (SFH), a new method that makes use of local surface heating and thermal imaging

New insights into microbial ecology through subtle nucleotide variation

© The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Frontiers in Microbiology 7 (2016): 1318, doi:10.3389/fmicb.2016.01318.Characterizing the community structure of naturally occurring microbes through marker gene amplicons has gained widespread acceptance for profiling microbial populations. The 16S ribosomal RNA (rRNA) gene provides a suitable target for most studies since (1) it meets the criteria for robust markers of evolution, e.g., both conserved and rapidly evolving regions that do not undergo horizontal gene transfer, (2) microbial ecologists have identified widely adopted primers and protocols for generating amplicons for sequencing, (3) analyses of both cultivars and environmental DNA have generated well-curated databases for taxonomic profiling, and (4) bioinformaticians and computational biologists have published comprehensive software tools for interpreting the data and generating publication-ready figures. Since the initial descriptions of high-throughput sequencing of 16S rRNA gene amplicons to survey microbial diversity, we have witnessed an explosion of association-based inferences of interactions between microbes and their environment.AME was supported by the University of Chicago and the Marine Biological Laboratory collaboration award

Understanding the effects of peripheral vision and muscle memory on in-vehicle touchscreen interactions

It is important to gain a better understanding of how drivers interact with in-vehicle touchscreens to help design interfaces to minimise “eyes off road” time. The study aimed to investigate the relative effects of two interaction mechanisms (peripheral vision - PV and muscle memory - MM) shown to be relevant to visual behaviour when driving, on the time to press different sized buttons (small 6x6cm, medium 10x10cm, large 14x14cm) on an in-vehicle touchscreen. Twenty-five participants took part in a driving simulator study. They were presented with a single, white, square button on the touchscreen on 24 successive trials. For MM conditions, participants wore a pair of glasses that blocked their peripheral vision and for PV conditions they were asked to keep their focus on the vehicle in front throughout. Results showed that task time gradually decreased for the trials when participants could only use MM. However, overall task time for MM conditions were significantly higher than for those in which PV was utilised, and participants rated the use of MM to be more difficult than PV. In contrast, results suggest that for interfaces that utilise peripheral visual processing the learning effect is not evident and operation times are constant over time. These findings indicate that in-vehicle touch screens should be designed to utilise peripheral vision for making simple button selections with reduced visual demand

Understanding the effects of peripheral vision and muscle memory on in-vehicle touchscreen interactions

It is important to gain a better understanding of how drivers interact with in-vehicle touchscreens to help design interfaces to minimise “eyes off road” time. The study aimed to investigate the relative effects of two interaction mechanisms (peripheral vision - PV and muscle memory - MM) shown to be relevant to visual behaviour when driving, on the time to press different sized buttons (small 6x6cm, medium 10x10cm, large 14x14cm) on an in-vehicle touchscreen. Twenty-five participants took part in a driving simulator study. They were presented with a single, white, square button on the touchscreen on 24 successive trials. For MM conditions, participants wore a pair of glasses that blocked their peripheral vision and for PV conditions they were asked to keep their focus on the vehicle in front throughout. Results showed that task time gradually decreased for the trials when participants could only use MM. However, overall task time for MM conditions were significantly higher than for those in which PV was utilised, and participants rated the use of MM to be more difficult than PV. In contrast, results suggest that for interfaces that utilise peripheral visual processing the learning effect is not evident and operation times are constant over time. These findings indicate that in-vehicle touch screens should be designed to utilise peripheral vision for making simple button selections with reduced visual demand

DRISEE overestimates errors in metagenomic sequencing data

© The Author(s), 2013. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Briefings in Bioinformatics 15 (2014): 783-787, doi:10.1093/bib/bbt010.The extremely high error rates reported by Keegan et al. in ‘A platform-independent method for detecting errors in metagenomic sequencing data: DRISEE’ (PLoS Comput Biol 2012;8:e1002541) for many next-generation sequencing datasets prompted us to re-examine their results. Our analysis reveals that the presence of conserved artificial sequences, e.g. Illumina adapters, and other naturally occurring sequence motifs accounts for most of the reported errors. We conclude that DRISEE reports inflated levels of sequencing error, particularly for Illumina data. Tools offered for evaluating large datasets need scrupulous review before they are implemented.National Institutes of Health [1UH2DK083993 to M.L.S.]; National Science Foundation [BDI- 096026 to S.M.H.]

Work function of few layer graphene covered nickel thin films measured with Kelvin probe force microscopy

Few layer graphene and graphite are simultaneously grown on a similar to 100 nm thick polycrystalline nickel film. The work function of few layer graphene/Ni is found to be 4.15 eV with a variation of 50 meV by local measurements with Kelvin probe force microscopy. This value is lower than the work function of free standing graphene due to peculiar electronic structure resulting from metal 3d-carbon 2p(pi) hybridization. (C) 2016 AIP Publishing LLC

Disturbance Facilitates Invasion: The Effects are Stronger Abroad than at Home

Disturbance is one of the most important factors promoting exotic invasion. However, if disturbance per se is sufficient to explain exotic success, then invasion abroad should not differ from colonization at home. Comparisons of the effects of disturbance on organisms in their native and introduced ranges are crucial to elucidate whether this is the case; however, such comparisons have not been conducted. We investigated the effects of disturbance on the success of Eurasian native Centaurea solstitialis in two invaded regions, California and Argentina, and one native region, Turkey, by conducting field experiments consisting of simulating different disturbances and adding locally collected C. solstitialis seeds. We also tested differences among C. solstitialis genotypes in these three regions and the effects of local soil microbes on C. solstitialis performance in greenhouse experiments. Disturbance increased C. solstitialis abundance and performance far more in nonnative ranges than in the native range, but C. solstitialis biomass and fecundity were similar among populations from all regions grown under common conditions. Eurasian soil microbes suppressed growth of C. solstitialis plants, while Californian and Argentinean soil biota did not. We suggest that escape from soil pathogens may contribute to the disproportionately powerful effect of disturbance in introduced regions

Ecological succession and stochastic variation in the assembly of Arabidopsis thaliana phyllosphere communities

© The Author(s), 2014. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in mBio 5 (2014): e00682-13, doi:10.1128/mBio.00682-13.Bacteria living on the aerial parts of plants (the phyllosphere) are globally abundant and ecologically significant communities and can have significant effects on their plant hosts. Despite their importance, little is known about the ecological processes that drive phyllosphere dynamics. Here, we describe the development of phyllosphere bacterial communities over time on the model plant Arabidopsis thaliana in a controlled greenhouse environment. We used a large number of replicate plants to identify repeatable dynamics in phyllosphere community assembly and reconstructed assembly history by measuring the composition of the airborne community immigrating to plant leaves. We used more than 260,000 sequences from the v5v6 hypervariable region of the 16S rRNA gene to characterize bacterial community structure on 32 plant and 21 air samples over 73 days. We observed strong, reproducible successional dynamics: phyllosphere communities initially mirrored airborne communities and subsequently converged to a distinct community composition. While the presence or absence of particular taxa in the phyllosphere was conserved across replicates, suggesting strong selection for community composition, the relative abundance of these taxa was highly variable and related to the spatial association of individual plants. Our results suggest that stochastic events in early colonization, coupled with dispersal limitation, generated alternate trajectories of bacterial community assembly within the context of deterministic selection for community membership.Funding was provided by the J. Unger Vetleson Foundation to S.L.S